47 citations · 109 across the 7 of their papers we have counts for
7 papers
Black holes submerged in Anti-de Sitter space
Hideki Ishihara, Satsuki Matsuno, Haruki Nakamura
Suppose a one-dimensional isometry group acts on a space, we can consider a submergion induced by the isometry, namely we obtain an orbit space by identification of points on the o…
Local representation of N-body Coulomb energy with path integrals
Takanori Sugihara, Junichi Higo, Haruki Nakamura
We represent N-body Coulomb energy in a localized form to achieve massive parallelism. It is a well-known fact that Green's functions can be written as path integrals of field theo…
Composite structural motifs of binding sites for delineating biological functions of proteins
Akira R. Kinjo, Haruki Nakamura
Most biological processes are described as a series of interactions between proteins and other molecules, and interactions are in turn described in terms of atomic structures. To a…
Parallelization of Markov chain generation and its application to the multicanonical method
Takanori Sugihara, Junichi Higo, Haruki Nakamura
We develop a simple algorithm to parallelize generation processes of Markov chains. In this algorithm, multiple Markov chains are generated in parallel and jointed together to make…
Comprehensive structural classification of ligand binding motifs in proteins
Akira R. Kinjo, Haruki Nakamura
Comprehensive knowledge of protein-ligand interactions should provide a useful basis for annotating protein functions, studying protein evolution, engineering enzymatic activity, a…
Similarity search for local protein structures at atomic resolution by exploiting a database management system
Akira R. Kinjo, Haruki Nakamura
A method to search for local structural similarities in proteins at atomic resolution is presented. It is demonstrated that a huge amount of structural data can be handled within a…